*Target (protein/gene name): Serine-threonine protein phosphatase *NCBI Gene # or RefSeq#: 2655328 *Protein ID (NP or XP #) or Wolbachia#: MAL7P1.230 *Organism (including strain): Plasmodium falciparum 3D7 (isolate:3D7) Etiologic Risk Group (see link below): Risk group 3 *Background/Disease Information (sort of like the Intro to your Mini Research Write up):
Malaria is a life-threatening disease caused by protozoan parasites called Plasmodia. This disease is transmitted to humans from the bites of infected Anopheles mosquitoes. Currently, there are four types of malaria species that have been found to affect humans. They consist of Plasmodium falciparum, Plasmodium vivax, Plasmodium malariae, and Plasmodium ovale. Link to TDR Targets page (if present):http://www.tdrtargets.org/targets/view?gene_id=533 Link to Gene Database page (NCBI, EuPath databases -e.g. TryTryp, PlasmoDB, etc - or PATRIC, etc.)http://www.ncbi.nlm.nih.gov/gene/2655328 Essentiality of this protein: Complex of proteins?:n/a Druggable Target (list number or cite evidence from a paper/database showing druggable in another organism): .5
GAP50 the anchor in the inner membrane complex of PlasmodiumProtein chains are colored from the N-terminal to the C-terminal using a rainbow (spectral) color gradient PTB
-- PDB # or closest PDB entry if using homology model: GAP50
-- For Homology Model option:
---- Show pairwise alignment of your BLASTP search in NCBI against the PDB
---- Query Coverage:99%
---- Max % Identities:100%
---- % Positives 100%
---- Chain used for homology: Chain A
Current Inhibitors:info could not be found Expression Information (has it been expressed in bacterial cells): Purification Method:n/a Image of protein (PyMol with features delineated and shown separately): *Amino Acid Sequence (paste as text only - not as screenshot or as 'code'):
TATTTTTGTCAAAAATTTTTATATTTCTTTGATGTTCCGTTCTATAATTTCACGAAAATGCATTTGTCAG
TAGTCTTGAATTCAATATATACGTCTTTTTTTATTAAACAAAAAAAAAAAAAAACTTCTTATTAATAATG
TAAAAAAATAAAAGGAAAGAATAATAAGTGTTTCTTTCTTTTTATTTATTTATTTATCTATTTATTTTTC
TTTCTTTTCCTTTTTCTTTTTTGAATAATTAAAAAAATAAACCATTTAAAAAGAAAGTAAAAATAATTAT
CTATACATAAATAATTATACATATATATATATACAAAATTATGGAACCACTGCCTGATCCGAAGAATGAT
AGACAAGTGAAGGATGTTGAGCCTCCACCAGCAAAAGTAAGAAGAATACTGATTAAGAATTTTATCTATC
ATTATGAATATTTATGTCTAATTTGCTTTTTTATTTTATATTTATAATTTTAACATTTTCATAAATATAT
AATATACATTCGTAATTTGGAACACACCCATATAATATATATATATATATATTTATTTATTTATTTATTT
ATATTTCCTATACTAGCTAGCCAAAAGATAAATTATGAACAATTCATAATTTTGTTAATTTTGTTCATAT
TATTTTCCTTATTTTTTTATTTTTTATTTTTTTATTTTTTATTTTTTATTTTTTTATTTTTTTATTTAGC
CGTTAAGCTTAGAACTACTATATCCAAACGGAACGGAAGAGCCACCAGATTATAAAGCTCTAAGAGATCA
TTTAAAAAAAGAGGGTCGCATAAGAAAAGAAGATTGTTTAGATATAATAAAGAAGGTGATAGATATAGTA
AGCAATGAACCGAATTTATTGAGGTTAAAGGACCCAATAACAATTGTTGGAGATATTCATGGTCAGTATT
ATGATTTATTAAAATTATTGGAAGTTGGAGGTAATCCTGATCATACTCAATTTTTATTTTTAGGAGATTA
TGTCGATAGGGGTTCGTTTAGTATAGAAGTATTATTATTATTATATGCTTTAAAAATAAATTTCCCTGAT
CGCATATGGTTAATACGAGGAAATCATGAATGTCGTCAAATGACAACATTTTTTAATTTTAGAGATGAAT
GTGAATATAAGTATGATATAGTAGTATATTATGCTTTTATGGAATCTTTTGATACAATTCCTTTATCAGC
TGTAATAAATGGTAAATTTTTAGGAGTTCATGGTGGTTTATCTCCTGATTTAATATTATTGAATCAAATA
TGTTCATTTACTCGATTTCAAGAACCTCCACGTTCAGGAATTTTCTGTGACATATTATGGTCAGATCCTA
TTGATGAAGATAAAGAAGAGCATACCATACAAACTGAATCTTATTTTCCTAATGACATAAGAGGATGTAG
TTATTTTTTTGGATACAATGCAGCAACAACATTTTTAGAAAAAAATGGTTTATTATCAATAATACGAGCC
CACGAAGCTCAGCTTGAAGGATATAAAATGCATCAGACAAATTTAAAGACTGGTTTTCCCATAGTTATAA
CTATATTTTCAGCTCCTAATTATTGTGATGTTTATAATAACAAAGGTGCCGTTTTAAAATTCGATAGTAA
CACATTAAATATACAACAATTTAGTTTTTCACCTCATCCTTACCATTTACCTAATTTTATGAATTTATTT
ACATGGTCCTTACCATTTGTAAGCGAAAAAGTTACGGAAATGTTGTATTCCCTTTTAAATTGTAGTATGA
ATGATACGGATGAAGGGATAAACGATATCGTTTTACCTAAAGAAGTAATACAAATTTTAAATTATATTGA
AGAAAATAATAAAAGAATTAATGAAATGAATTTTAATAACAACGATGATAATGTACAATATGAAGATAAT
GGTCCATATATAAATCAAAGTAATAATAATAATAATAATAATAATAAGGATAACAAGTTTGATGATATTA
CTTATGATGATCATAAAAAAGAGAAAGACAAAAGAAATAAAATATCTTCTAATGGTAATATGCAAGATAA
TAATCAATTATATGATCATTCAGAAGGACATAATAATTATAATGATGAAGATGAATTCTTCAAAAATGTT
AAAAAGACAGATACAAATAATAATAATAATAATGAGGAAGAGGACGAGGAAGAGGACGAGGAGGAGGAGG
AGGATGGAAGAAAAACTAAAGATGTAGGACAAGTATCTAAAGAAAGAACGGATACTCTAAGAAAAAAAGT
ACAATCGGTAGGTAGACTAATGAGAGTTTTTAGAACCTTAAGGAAAGAAAATGAATTAATTGTGCAACTT
AAAGGATGTAGTCCTGGTTATAGAATACCTGTAGGGTTATTATTAAGTGGAAAAGAGGGATTGGAAAATG
AGCTCGAAAAATTTACAAAGGTTAAAGAAATTGATAGTATTAACGAAAAGAGGCCATCCAACGAATAAAA
AAAAAAAAATAATAAATAAATAAAAATAAATGAATGAATGAATAAATGAATAAACAAATAAATGAATGTA
TGAATAAATGAATAAACAAATAAATGAATGTATGAATAAATGAATAAACAAATAAATGAATGTATGAATA
AATGAATAAACAAATAAATGAATGTATGAATAAATGTGTTTGTGTGGATGGATTGGTTTATGAGTATTTA
CAAATAAAATGTAAAAATTATGATAAAATAAGAAAATCATAGTACATAGGAATAGAAGAACATACAACAC
AATTTGTATACATACATACATATGTATATATATATA *length of your protein in Amino Acids 2766 Molecular Weight of your protein in kiloDaltons using the Expasy ProtParam website :228446.7 Molar Extinction coefficient of your protein at 280 nm wavelength:
Ext. coefficient 17125 Abs 0.1% (=1 g/l) 0.075, assuming all pairs of Cys residues form cystine
Ext. coefficient 0
Abs 0.1% (=1 g/l) 0.000, assuming all Cys residues are reduced TMpred graph Image (http://www.ch.embnet.org/software/TMPRED_form.html). Input your amino acid sequence to it.
results
*CDS Gene Sequence (paste as text only): info could not be found *GC% Content for gene: *CDS Gene Sequence (codon optimized) - copy from output of Primer Design Protocol (paste as text only): *GC% Content for gene (codon optimized):
Do Not Need this info for Spring (but still copy these lines to your Target page for now) Primer design results for pNIC-Bsa4 cloning (list seqeunces of all of your ~40 nt long primers): (link to DNA Works output text file - that should be saved in your Google Docs folder after you did the primer design protocol)
-- Ask a mentor, Dr. B, or a fellow researcher -how to link a GDocs file if you are not sure how to.
Primer design results for 'tail' primers (this is just 2 sequences):
*NCBI Gene # or RefSeq#: 2655328
*Protein ID (NP or XP #) or Wolbachia#: MAL7P1.230
*Organism (including strain): Plasmodium falciparum 3D7 (isolate:3D7)
Etiologic Risk Group (see link below): Risk group 3
*Background/Disease Information (sort of like the Intro to your Mini Research Write up):
Malaria is a life-threatening disease caused by protozoan parasites called Plasmodia. This disease is transmitted to humans from the bites of infected Anopheles mosquitoes. Currently, there are four types of malaria species that have been found to affect humans. They consist of Plasmodium falciparum, Plasmodium vivax, Plasmodium malariae, and Plasmodium ovale.
Link to TDR Targets page (if present): http://www.tdrtargets.org/targets/view?gene_id=533
Link to Gene Database page (NCBI, EuPath databases -e.g. TryTryp, PlasmoDB, etc - or PATRIC, etc.) http://www.ncbi.nlm.nih.gov/gene/2655328
Essentiality of this protein:
Complex of proteins?:n/a
Druggable Target (list number or cite evidence from a paper/database showing druggable in another organism): .5
*EC#: 3.1.3.16
Link to BRENDA EC# page: http://www.brenda-enzymes.org/php/result_flat.php4?ecno=3.1.3.16
-- Show screenshot of BRENDA enzyme mechanism schematic
Enzyme Assay information (spectrophotometric, coupled assay ?, reagents):
-- link to Sigma (or other company) page for assay (see Sigma links below)
http://www.sigmaaldrich.com/life-science/metabolomics/enzyme-explorer/learning-center/assay-library/ec-number-iii.html
-- -or link (or citation) to paper that contains assay information
http://www.sigmaaldrich.com/content/dam/sigma-aldrich/docs/Sigma/Enzyme_Assay/calcineurin.pdf
-- links to assay reagents (substrates) pages.
http://www.sigmaaldrich.com/catalog/search?interface=All&term=serine-threonine%20protein%20phosphatase&N=0&focus=product&lang=en®ion=US
--- List cost and quantity of substrate reagents, supplier, and catalog #
$297.50 for .1ML
Supplier: Sigma Aldrich (from Saint Louis)
CAS#:0000000000
Structure Available (PDB or Homology model)
-- PDB # or closest PDB entry if using homology model: GAP50
-- For Homology Model option:
---- Show pairwise alignment of your BLASTP search in NCBI against the PDB
---- Query Coverage:99%
---- Max % Identities:100%
---- % Positives 100%
---- Chain used for homology: Chain A
Current Inhibitors:info could not be found
Expression Information (has it been expressed in bacterial cells):
Purification Method:n/a
Image of protein (PyMol with features delineated and shown separately):
*Amino Acid Sequence (paste as text only - not as screenshot or as 'code'):
TATTTTTGTCAAAAATTTTTATATTTCTTTGATGTTCCGTTCTATAATTTCACGAAAATGCATTTGTCAG
TAGTCTTGAATTCAATATATACGTCTTTTTTTATTAAACAAAAAAAAAAAAAAACTTCTTATTAATAATG
TAAAAAAATAAAAGGAAAGAATAATAAGTGTTTCTTTCTTTTTATTTATTTATTTATCTATTTATTTTTC
TTTCTTTTCCTTTTTCTTTTTTGAATAATTAAAAAAATAAACCATTTAAAAAGAAAGTAAAAATAATTAT
CTATACATAAATAATTATACATATATATATATACAAAATTATGGAACCACTGCCTGATCCGAAGAATGAT
AGACAAGTGAAGGATGTTGAGCCTCCACCAGCAAAAGTAAGAAGAATACTGATTAAGAATTTTATCTATC
ATTATGAATATTTATGTCTAATTTGCTTTTTTATTTTATATTTATAATTTTAACATTTTCATAAATATAT
AATATACATTCGTAATTTGGAACACACCCATATAATATATATATATATATATTTATTTATTTATTTATTT
ATATTTCCTATACTAGCTAGCCAAAAGATAAATTATGAACAATTCATAATTTTGTTAATTTTGTTCATAT
TATTTTCCTTATTTTTTTATTTTTTATTTTTTTATTTTTTATTTTTTATTTTTTTATTTTTTTATTTAGC
CGTTAAGCTTAGAACTACTATATCCAAACGGAACGGAAGAGCCACCAGATTATAAAGCTCTAAGAGATCA
TTTAAAAAAAGAGGGTCGCATAAGAAAAGAAGATTGTTTAGATATAATAAAGAAGGTGATAGATATAGTA
AGCAATGAACCGAATTTATTGAGGTTAAAGGACCCAATAACAATTGTTGGAGATATTCATGGTCAGTATT
ATGATTTATTAAAATTATTGGAAGTTGGAGGTAATCCTGATCATACTCAATTTTTATTTTTAGGAGATTA
TGTCGATAGGGGTTCGTTTAGTATAGAAGTATTATTATTATTATATGCTTTAAAAATAAATTTCCCTGAT
CGCATATGGTTAATACGAGGAAATCATGAATGTCGTCAAATGACAACATTTTTTAATTTTAGAGATGAAT
GTGAATATAAGTATGATATAGTAGTATATTATGCTTTTATGGAATCTTTTGATACAATTCCTTTATCAGC
TGTAATAAATGGTAAATTTTTAGGAGTTCATGGTGGTTTATCTCCTGATTTAATATTATTGAATCAAATA
TGTTCATTTACTCGATTTCAAGAACCTCCACGTTCAGGAATTTTCTGTGACATATTATGGTCAGATCCTA
TTGATGAAGATAAAGAAGAGCATACCATACAAACTGAATCTTATTTTCCTAATGACATAAGAGGATGTAG
TTATTTTTTTGGATACAATGCAGCAACAACATTTTTAGAAAAAAATGGTTTATTATCAATAATACGAGCC
CACGAAGCTCAGCTTGAAGGATATAAAATGCATCAGACAAATTTAAAGACTGGTTTTCCCATAGTTATAA
CTATATTTTCAGCTCCTAATTATTGTGATGTTTATAATAACAAAGGTGCCGTTTTAAAATTCGATAGTAA
CACATTAAATATACAACAATTTAGTTTTTCACCTCATCCTTACCATTTACCTAATTTTATGAATTTATTT
ACATGGTCCTTACCATTTGTAAGCGAAAAAGTTACGGAAATGTTGTATTCCCTTTTAAATTGTAGTATGA
ATGATACGGATGAAGGGATAAACGATATCGTTTTACCTAAAGAAGTAATACAAATTTTAAATTATATTGA
AGAAAATAATAAAAGAATTAATGAAATGAATTTTAATAACAACGATGATAATGTACAATATGAAGATAAT
GGTCCATATATAAATCAAAGTAATAATAATAATAATAATAATAATAAGGATAACAAGTTTGATGATATTA
CTTATGATGATCATAAAAAAGAGAAAGACAAAAGAAATAAAATATCTTCTAATGGTAATATGCAAGATAA
TAATCAATTATATGATCATTCAGAAGGACATAATAATTATAATGATGAAGATGAATTCTTCAAAAATGTT
AAAAAGACAGATACAAATAATAATAATAATAATGAGGAAGAGGACGAGGAAGAGGACGAGGAGGAGGAGG
AGGATGGAAGAAAAACTAAAGATGTAGGACAAGTATCTAAAGAAAGAACGGATACTCTAAGAAAAAAAGT
ACAATCGGTAGGTAGACTAATGAGAGTTTTTAGAACCTTAAGGAAAGAAAATGAATTAATTGTGCAACTT
AAAGGATGTAGTCCTGGTTATAGAATACCTGTAGGGTTATTATTAAGTGGAAAAGAGGGATTGGAAAATG
AGCTCGAAAAATTTACAAAGGTTAAAGAAATTGATAGTATTAACGAAAAGAGGCCATCCAACGAATAAAA
AAAAAAAAATAATAAATAAATAAAAATAAATGAATGAATGAATAAATGAATAAACAAATAAATGAATGTA
TGAATAAATGAATAAACAAATAAATGAATGTATGAATAAATGAATAAACAAATAAATGAATGTATGAATA
AATGAATAAACAAATAAATGAATGTATGAATAAATGTGTTTGTGTGGATGGATTGGTTTATGAGTATTTA
CAAATAAAATGTAAAAATTATGATAAAATAAGAAAATCATAGTACATAGGAATAGAAGAACATACAACAC
AATTTGTATACATACATACATATGTATATATATATA
*length of your protein in Amino Acids 2766
Molecular Weight of your protein in kiloDaltons using the Expasy ProtParam website :228446.7
Molar Extinction coefficient of your protein at 280 nm wavelength:
Ext. coefficient 17125
Abs 0.1% (=1 g/l) 0.075, assuming all pairs of Cys residues form cystine
Ext. coefficient 0
Abs 0.1% (=1 g/l) 0.000, assuming all Cys residues are reduced
TMpred graph Image (http://www.ch.embnet.org/software/TMPRED_form.html). Input your amino acid sequence to it.
*CDS Gene Sequence (paste as text only): info could not be found
*GC% Content for gene:
*CDS Gene Sequence (codon optimized) - copy from output of Primer Design Protocol (paste as text only):
*GC% Content for gene (codon optimized):
Do Not Need this info for Spring (but still copy these lines to your Target page for now)
Primer design results for pNIC-Bsa4 cloning (list seqeunces of all of your ~40 nt long primers):
(link to DNA Works output text file - that should be saved in your Google Docs folder after you did the primer design protocol)
-- Ask a mentor, Dr. B, or a fellow researcher -how to link a GDocs file if you are not sure how to.
Primer design results for 'tail' primers (this is just 2 sequences):